title: Chromatin folding--from biology to polymer models and back.
abstract: There is rapidly growing evidence that folding of the chromatin fibre inside the interphase nucleus has an important role in the regulation of gene expression. In particular, the formation of loops mediated by the interaction between specific regulatory elements, for instance enhancers and promoters, is crucial in gene control. Biochemical studies that were based on the chromosome conformation capture (3C) technology have confirmed that eukaryotic genomes are highly looped. Insight into the underlying principles comes from polymer models that explore the properties of the chromatin fibre inside the nucleus. Recent models indicate that chromatin looping can explain various properties of interphase chromatin, including chromatin compaction and compartmentalisation of chromosomes. Entropic effects have a key role in these models. In this Commentary, we give an overview of the recent conjunction of ideas regarding chromatin looping in the fields of biology and polymer physics. Starting from simple linear polymer models, we explain how specific folding properties emerge upon introducing loops and how this explains a variety of experimental observations. We also discuss different polymer models that describe chromatin folding and compare them to experimental data. Experimentally testing the predictions of such polymer models and their subsequent improvement on the basis of measurements provides a solid framework to begin to understand how our genome is folded and how folding relates to function.
authors.affiliation: Swammerdam Institute for Life Sciences, University of Amsterdam, PO Box 94215, 1090GE Amsterdam, The Netherlands.
authors.forename: Mariliis
authors.initials: M
authors.lastname: Tark-Dame
authors.forename: Roel
authors.initials: R
authors.lastname: van Driel
authors.forename: Dieter W
authors.initials: DW
authors.lastname: Heermann
mesh_terms: D000818:Animals; D002467:Cell Nucleus / Q000737:chemistry / Q000235:genetics / Q000378:metabolism; D002843:Chromatin / Q000737:chemistry* / Q000235:genetics / Q000378:metabolism; D002875:Chromosomes / Q000737:chemistry / Q000235:genetics / Q000378:metabolism; D006801:Humans; D008954:Models, Biological; D011108:Polymers / Q000737:chemistry* / Q000378:metabolism; D017510:Protein Folding
chemical_list: D002843:Chromatin; D011108:Polymers